Contacts of the strand formed by residues 139 - 151 (chain A) in PDB entry 4EN0
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLY 139 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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137A LYS 3.7 1.2 + - - -
138A ALA* 1.3 76.0 - - - +
140A TYR* 1.3 63.2 + - - -
141A TYR* 3.2 13.1 - - - -
208A HIS* 4.1 15.7 + - - -
209A LEU 2.9 32.3 + - - -
239A MET* 5.0 0.9 - - - -
301A PO4 3.4 14.6 - - - -
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Residues in contact with TYR 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A GLY* 1.3 71.1 - - - -
141A TYR* 1.3 55.9 + - - +
206A VAL* 4.2 9.9 - - + -
207A VAL 3.6 2.2 - - - -
208A HIS* 3.3 44.0 + + + -
239A MET* 3.5 4.3 - - - +
240A VAL* 2.6 45.9 + - + +
301A PO4 3.0 10.1 + - - -
95B ALA* 5.3 2.0 - - + -
122B PHE* 3.4 55.4 - + + +
124B ARG* 3.2 49.9 - - - +
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Residues in contact with TYR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A PRO* 3.6 16.9 - - + +
126A LEU* 3.6 35.4 - - + +
135A VAL* 3.8 13.2 - - + +
137A LYS* 2.3 41.2 + - - +
139A GLY* 3.2 22.7 - - - -
140A TYR* 1.3 74.6 - - - +
142A TYR* 1.3 62.1 + - - +
143A ILE* 3.4 10.0 + - + -
206A VAL* 4.3 2.5 - - - -
207A VAL* 2.9 33.8 + - - +
209A LEU* 4.0 28.0 - - + -
237A ALA* 4.7 2.9 - - + -
238A PHE* 3.5 7.9 - - - +
239A MET* 3.7 32.7 - - + -
240A VAL* 4.3 1.1 - - - -
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Residues in contact with TYR 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A TYR* 1.3 69.2 - - - +
143A ILE* 1.3 60.1 + - - +
144A TYR* 3.8 19.7 - + + -
202A PHE* 3.8 2.4 - - - -
204A GLY* 3.4 20.2 - - - -
205A GLY* 3.4 29.6 - - - -
206A VAL* 4.0 5.4 - - + +
237A ALA* 3.1 3.8 - - - -
238A PHE* 2.9 61.6 + + + -
240A VAL* 3.6 21.0 - - + +
142B TYR* 3.2 35.9 + + - -
144B TYR* 4.2 5.6 - + - -
202B PHE* 3.7 6.2 - - - -
238B PHE* 3.5 15.7 - + + -
142C TYR* 3.4 23.6 + + - -
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Residues in contact with ILE 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A LEU* 6.2 0.4 - - + -
141A TYR* 3.4 3.1 + - + +
142A TYR* 1.3 75.9 - - - +
144A TYR* 1.3 62.1 + - - +
166A LEU* 4.0 17.9 - - + -
179A LEU* 3.8 20.4 - - + -
180A LEU* 3.7 21.4 - - + +
204A GLY* 3.3 2.8 - - - -
205A GLY 2.9 42.0 + - - +
207A VAL* 3.7 29.4 - - + -
209A LEU* 4.2 15.7 - - + -
215A VAL* 4.3 15.5 - - + -
235A PHE* 5.4 1.6 - - + -
236A GLY 3.8 4.9 - - - +
237A ALA* 3.7 17.3 - - + -
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Residues in contact with TYR 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A HIS* 2.5 33.7 + - - +
142A TYR* 3.8 26.2 - + + -
143A ILE* 1.3 76.4 - - - +
145A SER* 1.3 64.8 + - - +
166A LEU* 4.1 4.3 - - - -
202A PHE* 4.0 8.7 - + + -
203A LEU 3.1 12.6 - - - +
204A GLY* 4.2 0.4 - - - -
234A TYR* 3.5 32.3 - + - -
235A PHE* 3.4 4.0 - - - -
236A GLY* 2.9 65.6 + - - +
237A ALA* 3.5 9.2 - - - -
238A PHE* 4.5 1.1 - + - -
142C TYR* 4.5 2.2 - + - -
204C GLY 3.6 13.2 - - - -
205C GLY* 3.7 6.5 - - - -
206C VAL* 2.9 33.0 + - + +
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Residues in contact with SER 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A TRP* 4.6 0.2 - - - -
144A TYR* 1.3 79.2 - - - +
146A LYS* 1.3 61.1 + - - +
147A VAL* 4.0 1.4 - - - +
164A HIS* 3.1 29.3 + - - -
166A LEU* 3.9 11.8 - - - +
202A PHE* 3.6 5.4 - - - -
203A LEU 2.9 32.3 + - - +
217A VAL* 3.5 28.9 - - - +
234A TYR 3.1 16.2 + - - -
235A PHE* 3.9 1.3 - - - +
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Residues in contact with LYS 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A SER* 1.3 75.2 - - - +
147A VAL* 1.3 72.9 + - - +
148A GLN* 3.5 32.5 + - - +
200A SER* 3.1 24.2 + - - +
201A SER 3.1 7.9 - - - +
202A PHE* 3.7 20.6 - - + -
232A ARG 3.4 20.1 + - - -
233A SER* 3.2 1.6 - - - -
234A TYR* 2.9 64.7 + - + +
181C VAL 2.8 30.1 + - - -
182C SER* 4.0 0.4 - - - +
202C PHE 4.8 0.2 - - - +
203C LEU* 4.2 10.8 - - + -
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Residues in contact with VAL 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A LEU* 4.6 9.9 - - + -
114A TRP* 4.8 1.6 - - + -
145A SER* 4.0 4.0 - - - +
146A LYS* 1.3 82.0 - - - +
148A GLN* 1.3 70.9 + - - +
149A LEU* 3.5 30.9 - - + +
164A HIS* 3.3 38.6 - - + +
200A SER* 3.5 2.6 - - - -
201A SER* 2.9 34.0 + - - +
217A VAL* 4.4 7.4 - - + -
219A VAL* 4.5 13.5 - - + -
222A GLU* 5.5 0.9 - - - +
233A SER* 3.3 11.4 - - - +
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Residues in contact with GLN 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A LYS* 3.5 14.5 + - - +
147A VAL* 1.3 80.5 - - - +
149A LEU* 1.3 64.9 + - - +
198A TRP* 3.2 24.0 - - + -
199A ASP 3.3 11.3 + - - +
200A SER* 4.2 1.6 - - - +
222A GLU* 4.3 2.9 - - - +
226A ARG* 5.5 0.2 - - - +
229A ASP* 3.8 30.1 - - - +
232A ARG* 3.6 44.0 - - + +
233A SER* 2.8 13.6 + - - +
181C VAL 4.2 0.9 - - - +
182C SER* 3.9 0.9 - - - -
183C GLN* 2.8 45.8 + - - +
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A VAL* 3.5 33.2 - - + +
148A GLN* 1.3 81.6 + - - +
150A GLY* 1.3 58.2 + - - +
162A ILE* 3.7 46.7 - - + -
164A HIS* 5.4 2.0 - - + -
184A GLN* 5.2 5.8 - - + +
197A TRP* 4.3 7.2 - - + -
198A TRP* 3.4 4.3 - - - -
199A ASP* 2.9 46.2 + - + +
200A SER 4.4 3.4 - - - +
201A SER* 3.8 24.2 - - - +
219A VAL* 3.8 2.7 - - + -
222A GLU* 3.7 16.4 - - + -
226A ARG* 3.8 3.7 + - - -
229A ASP* 4.8 0.7 - - - -
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Residues in contact with GLY 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A LEU* 1.3 75.6 - - - +
151A GLY* 1.3 58.6 + - - -
162A ILE* 4.4 1.0 - - - +
197A TRP* 3.4 15.8 - - - -
222A GLU* 3.1 22.7 + - - +
223A ARG* 4.6 1.6 + - - +
224A LEU* 3.8 20.0 + - - +
226A ARG* 3.2 22.6 - - - +
229A ASP* 4.4 1.4 + - - -
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Residues in contact with GLY 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLY* 1.3 74.6 - - - -
152A VAL* 1.3 63.4 + - - -
153A GLY 3.4 2.7 - - - -
196A VAL* 3.2 9.9 - - - +
197A TRP* 3.0 56.3 + - - -
223A ARG* 5.5 4.5 - - - -
224A LEU* 3.9 5.7 - - - +
226A ARG* 3.9 2.1 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il